Lathyrus sativus LS007 genome assembly and annotation Rbp1.0

<p>Genome assembly of grass pea (<em>Lathyrus sativus</em> L.) genotype LS007, assembled from PromethION nanopore data and polished using Illumina HiSeq PE data. The assembly was annotated using the mikado-minos pipeline developed by the Earlham Institute. Also included is a separate annotation track for repeat sequences produced using the DANTE pipleline.&nbsp;</p> <p>&nbsp;</p> <p>For any questions regarding this dataset, contact peter.emmrich@jic.ac.uk</p> <p>&nbsp;</p> <p>Note: ctg14433 has been manually corrected based on sequenced amplicon data. Files have been updated accordingly.</p> <p>&nbsp;</p> <p><strong>Assembly files:</strong></p> <p>Lsativus_LS007_Rbp1.0.7z - compressed complete assembly without scaffolding. The annotation refers to this assembly</p> <p>Rbp_9 largest HiC scaffolds.7z - compressed fasta file of the largest 9 scaffolds following HiC scaffolding</p> <p>Lsat_LS007_Rbp_chloroplast.fasta - fasta file of the complete LS007 chloroplast genome</p> <p>Lsat_LS007_Rbp_mitochondrion.fasta - fasta file of the complete LS007 mitochondrial genome</p> <p>&nbsp;</p> <p><strong>Annotation tracks:</strong></p> <p>LATSA3860_EIv1.0.annotation.gff3</p> <p>DANTE_transposable_element_protein_domains.gff3</p> <p>Full_length_LTR_retrotransposons.gff3</p> <p>Repeat_annotation_classI_classII_satellites.gff3</p> <p>&nbsp;</p> <p><strong>Annotation FASTA files:</strong></p> <p>LATSA3860_EIv1.0.annotation.gff3.cds.fasta</p> <p>LATSA3860_EIv1.0.annotation.gff3.cdna.fasta</p> <p>LATSA3860_EIv1.0.annotation.gff3.pep.fasta</p> <p>&nbsp;</p> <p><strong>Summaries and statistics:</strong></p> <p>LATSA3860_EIv1.0.annotation.gff3.final_table.tsv</p> <p>LATSA3860_EIv1.0.annotation.gff3.mikado_stats.txt</p> <p>LATSA3860_EIv1.0.annotation.gff3.biotype_conf.summary</p> <p>LATSA3860_EIv1.0.annotation.gff3.final_table.tsv</p> <p>LATSA3860_EIv1.0.annotation.gff3.pep.fasta.functional_annotation.tsv</p> <p>NOT_UPDATED_LATSA3860_EIv1.0.annotation.gff3.metrics.tsv *</p> <p>Blobtools_passed_contigs.txt - list of all contigs of the assembly that pass the BlobTools filter (Streptophyta, 20-100x coverage, &gt;50 kbp)&nbsp;</p> <p>&nbsp;</p> <p>*this file has not been updated to reflect the correction to ctg14433</p>